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Protein

Histone H4

Gene

TGas006m08.1

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling (By similarity).By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi17 – 21By similarity5

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding

Enzyme and pathway databases

ReactomeiR-XTR-212300 PRC2 methylates histones and DNA
R-XTR-2299718 Condensation of Prophase Chromosomes
R-XTR-3214841 PKMTs methylate histone lysines
R-XTR-3214842 HDMs demethylate histones
R-XTR-3214847 HATs acetylate histones
R-XTR-3214858 RMTs methylate histone arginines
R-XTR-4551638 SUMOylation of chromatin organization proteins
R-XTR-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-XTR-5693571 Nonhomologous End-Joining (NHEJ)
R-XTR-69473 G2/M DNA damage checkpoint
R-XTR-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H4
Gene namesi
ORF Names:TGas006m08.1
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
Proteomesi
  • UP000008143 Componenti: Unassembled WGS sequence

Organism-specific databases

XenbaseiXB-GENE-5724689 hist1h4a

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00003073882 – 103Histone H4Add BLAST102

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Modified residuei2PhosphoserineBy similarity1
Modified residuei4Asymmetric dimethylarginine; by PRMT1; alternateBy similarity1
Modified residuei4Citrulline; alternateBy similarity1
Modified residuei4Omega-N-methylarginine; by PRMT1; alternateBy similarity1
Modified residuei4Symmetric dimethylarginine; by PRMT5 and PRMT7; alternateBy similarity1
Modified residuei6N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei6N6-acetyllysineBy similarity1
Modified residuei6N6-butyryllysine; alternateBy similarity1
Modified residuei9N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei9N6-acetyllysineBy similarity1
Modified residuei9N6-butyryllysine; alternateBy similarity1
Modified residuei9N6-propionyllysine; alternateBy similarity1
Modified residuei13N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei13N6-acetyllysineBy similarity1
Modified residuei13N6-butyryllysine; alternateBy similarity1
Modified residuei17N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei17N6-acetyllysineBy similarity1
Modified residuei17N6-butyryllysine; alternateBy similarity1
Modified residuei17N6-propionyllysine; alternateBy similarity1
Modified residuei21N6,N6,N6-trimethyllysine; alternateBy similarity1
Modified residuei21N6,N6-dimethyllysine; alternateBy similarity1
Modified residuei21N6-methyllysine; alternateBy similarity1
Modified residuei32N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei32N6-acetyllysineBy similarity1
Modified residuei32N6-butyryllysine; alternateBy similarity1
Modified residuei32N6-propionyllysine; alternateBy similarity1
Modified residuei32N6-succinyllysine; alternateBy similarity1
Modified residuei45N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei45N6-butyryllysine; alternateBy similarity1
Modified residuei45N6-propionyllysine; alternateBy similarity1
Modified residuei48Phosphoserine; by PAK2By similarity1
Modified residuei52PhosphotyrosineBy similarity1
Modified residuei60N6-(2-hydroxyisobutyryl)lysineBy similarity1
Modified residuei60N6-acetyllysineBy similarity1
Modified residuei78N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei78N6-butyryllysine; alternateBy similarity1
Modified residuei78N6-propionyllysine; alternateBy similarity1
Modified residuei78N6-succinyllysineBy similarity1
Modified residuei80N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei80N6-acetyllysineBy similarity1
Modified residuei80N6-butyryllysine; alternateBy similarity1
Modified residuei80N6-propionyllysine; alternateBy similarity1
Modified residuei89PhosphotyrosineBy similarity1
Modified residuei92N6-(2-hydroxyisobutyryl)lysine; alternateBy similarity1
Modified residuei92N6-acetyllysine; alternateBy similarity1
Modified residuei92N6-butyryllysine; alternateBy similarity1
Modified residuei92N6-propionyllysine; alternateBy similarity1
Modified residuei92N6-succinyllysine; alternateBy similarity1
Cross-linki92Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternateBy similarity

Post-translational modificationi

Acetylation at Lys-6 (H4K5ac), Lys-9 (H4K8ac), Lys-13 (H4K12ac) and Lys-17 (H4K16ac) occurs in coding regions of the genome but not in heterochromatin.By similarity
Citrullination at Arg-4 (H4R3ci) by PADI4 impairs methylation.By similarity
Monomethylation and asymmetric dimethylation at Arg-4 (H4R3me1 and H4R3me2a, respectively) by PRMT1 favors acetylation at Lys-9 (H4K8ac) and Lys-13 (H4K12ac). Demethylation is performed by JMJD6. Symmetric dimethylation on Arg-4 (H4R3me2s) by the PRDM1/PRMT5 complex may play a crucial role in the germ-cell lineage (By similarity).By similarity
Monomethylated, dimethylated or trimethylated at Lys-21 (H4K20me1, H4K20me2, H4K20me3). Monomethylation is performed by SET8. Trimethylation is performed by KMT5B and KMT5C and induces gene silencing (By similarity).By similarity
Phosphorylated by pak2 at Ser-48 (H4S47ph). This phosphorylation increases the association of H3.3-H4 with the histone chaperone HIRA, thus promoting nucleosome assembly of H3.3-H4 and inhibiting nucleosome assembly of H3.1-H4 (By similarity).By similarity
Ubiquitinated by the CUL4-DDB-RBX1 complex in response to ultraviolet irradiation. This may weaken the interaction between histones and DNA and facilitate DNA accessibility to repair proteins. Monoubiquitinated at Lys-92 of histone H4 (H4K91ub1) in response to DNA damage. The exact role of H4K91ub1 in DNA damage response is still unclear but it may function as a licensing signal for additional histone H4 post-translational modifications such as H4 Lys-21 methylation (H4K20me) (By similarity).By similarity
Sumoylated, which is associated with transcriptional repression.By similarity
Butyrylation of histones marks active promoters and competes with histone acetylation.By similarity

Keywords - PTMi

Acetylation, Citrullination, Hydroxylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiQ28DR4
PRIDEiQ28DR4

Expressioni

Gene expression databases

BgeeiENSXETG00000000626
ExpressionAtlasiQ28DR4 baseline

Interactioni

Subunit structurei

The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA (By similarity).By similarity

GO - Molecular functioni

Protein-protein interaction databases

STRINGi8364.ENSXETP00000063763

Structurei

3D structure databases

ProteinModelPortaliQ28DR4
SMRiQ28DR4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H4 family.Curated

Phylogenomic databases

eggNOGiKOG3467 Eukaryota
COG2036 LUCA
GeneTreeiENSGT00760000119019
HOGENOMiHOG000234654
HOVERGENiHBG051878
InParanoidiQ28DR4
KOiK11254
OMAiFTFINIT
OrthoDBiEOG091G0XGD

Family and domain databases

CDDicd00076 H4, 1 hit
Gene3Di1.10.20.10, 1 hit
InterProiView protein in InterPro
IPR035425 CENP-T/H4_C
IPR009072 Histone-fold
IPR001951 Histone_H4
IPR019809 Histone_H4_CS
IPR004823 TAF_TATA-bd
PfamiView protein in Pfam
PF15511 CENP-T_C, 1 hit
PRINTSiPR00623 HISTONEH4
SMARTiView protein in SMART
SM00417 H4, 1 hit
SM00803 TAF, 1 hit
SUPFAMiSSF47113 SSF47113, 1 hit
PROSITEiView protein in PROSITE
PS00047 HISTONE_H4, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q28DR4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGRGKGGKG LGKGGAKRHR KVLRDNIQGI TKPAIRRLAR RGGVKRISGL
60 70 80 90 100
IYEETRGVLK VFLENVIRDA VTYTEHAKRK TVTAMDVVYA LKRQGRTLYG

FGG
Length:103
Mass (Da):11,367
Last modified:April 4, 2006 - v1
Checksum:iA9E5DFD3F8B97598
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR848633 mRNA Translation: CAJ83618.1
RefSeqiNP_001016869.1, NM_001016869.2
XP_002933940.1, XM_002933894.4
XP_002942338.1, XM_002942292.4
XP_002943144.1, XM_002943098.4
XP_002944234.1, XM_002944188.4
XP_004917044.1, XM_004916987.3
XP_004917053.1, XM_004916996.3
XP_004917057.1, XM_004917000.3
XP_004917064.1, XM_004917007.3
XP_004919473.1, XM_004919416.2
XP_004919478.1, XM_004919421.3
XP_004919480.1, XM_004919423.3
XP_012817505.1, XM_012962051.2
XP_012817506.1, XM_012962052.2
XP_017945705.1, XM_018090216.1
XP_017948267.1, XM_018092778.1
XP_017948268.1, XM_018092779.1
XP_017948269.1, XM_018092780.1
XP_017952915.1, XM_018097426.1
UniGeneiStr.87083

Genome annotation databases

EnsembliENSXETT00000001377; ENSXETP00000001377; ENSXETG00000000626
ENSXETT00000044316; ENSXETP00000044316; ENSXETG00000020498
ENSXETT00000054182; ENSXETP00000054182; ENSXETG00000025390
ENSXETT00000054185; ENSXETP00000054185; ENSXETG00000025396
ENSXETT00000054589; ENSXETP00000054589; ENSXETG00000025686
ENSXETT00000054958; ENSXETP00000054958; ENSXETG00000025931
ENSXETT00000055001; ENSXETP00000055001; ENSXETG00000025961
ENSXETT00000055237; ENSXETP00000055237; ENSXETG00000026118
ENSXETT00000055544; ENSXETP00000055544; ENSXETG00000026305
ENSXETT00000056117; ENSXETP00000056117; ENSXETG00000026679
ENSXETT00000056585; ENSXETP00000056585; ENSXETG00000026965
ENSXETT00000056587; ENSXETP00000056587; ENSXETG00000026966
ENSXETT00000056849; ENSXETP00000056849; ENSXETG00000027140
ENSXETT00000056865; ENSXETP00000056865; ENSXETG00000027164
ENSXETT00000056866; ENSXETP00000056866; ENSXETG00000027166
ENSXETT00000056870; ENSXETP00000056870; ENSXETG00000027175
ENSXETT00000056873; ENSXETP00000056873; ENSXETG00000027178
ENSXETT00000056877; ENSXETP00000056877; ENSXETG00000027181
ENSXETT00000056881; ENSXETP00000056881; ENSXETG00000027187
ENSXETT00000056888; ENSXETP00000056888; ENSXETG00000027197
ENSXETT00000056892; ENSXETP00000056892; ENSXETG00000027200
ENSXETT00000056935; ENSXETP00000056935; ENSXETG00000027234
ENSXETT00000057375; ENSXETP00000057375; ENSXETG00000027514
ENSXETT00000060248; ENSXETP00000061007; ENSXETG00000033694
ENSXETT00000060829; ENSXETP00000060763; ENSXETG00000033642
ENSXETT00000060907; ENSXETP00000058936; ENSXETG00000030102
ENSXETT00000061323; ENSXETP00000059551; ENSXETG00000031445
ENSXETT00000061625; ENSXETP00000060942; ENSXETG00000029970
ENSXETT00000061711; ENSXETP00000061355; ENSXETG00000033639
ENSXETT00000062059; ENSXETP00000058860; ENSXETG00000031219
ENSXETT00000062061; ENSXETP00000061001; ENSXETG00000033998
ENSXETT00000062335; ENSXETP00000062223; ENSXETG00000031963
ENSXETT00000062534; ENSXETP00000061494; ENSXETG00000030318
ENSXETT00000062805; ENSXETP00000063397; ENSXETG00000033468
ENSXETT00000063366; ENSXETP00000062199; ENSXETG00000030676
ENSXETT00000063450; ENSXETP00000059940; ENSXETG00000032518
ENSXETT00000063455; ENSXETP00000061040; ENSXETG00000032853
ENSXETT00000064085; ENSXETP00000058765; ENSXETG00000031442
ENSXETT00000064177; ENSXETP00000061885; ENSXETG00000031724
ENSXETT00000064340; ENSXETP00000059040; ENSXETG00000030910
ENSXETT00000064842; ENSXETP00000062392; ENSXETG00000033857
ENSXETT00000065236; ENSXETP00000062836; ENSXETG00000031353
ENSXETT00000065428; ENSXETP00000063763; ENSXETG00000032108
ENSXETT00000065470; ENSXETP00000062225; ENSXETG00000033194
ENSXETT00000065633; ENSXETP00000061740; ENSXETG00000032665
ENSXETT00000066105; ENSXETP00000062375; ENSXETG00000032686
ENSXETT00000066352; ENSXETP00000062175; ENSXETG00000034227
GeneIDi100485962
100488032
100495184
100495739
100496758
101732103
101732638
101733182
101734147
101734426
101734891
105947139
105947140
108645245
108646289
108646290
108646291
108648868
549623
KEGGixtr:100485962
xtr:100488032
xtr:100495184
xtr:100495739
xtr:100496758
xtr:101732103
xtr:101732638
xtr:101733182
xtr:101734147
xtr:101734426
xtr:101734891
xtr:105947139
xtr:105947140
xtr:108645245
xtr:108646289
xtr:108646290
xtr:108646291
xtr:108648868
xtr:549623

Similar proteinsi

Entry informationi

Entry nameiH4_XENTR
AccessioniPrimary (citable) accession number: Q28DR4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 23, 2007
Last sequence update: April 4, 2006
Last modified: May 23, 2018
This is version 102 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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